Part C | 21
538 Part C Marine Genomics
References
21.1
M.C. Leal, J. Puga, J.S. dio, N.C.M. Gomes, R. Calado: Trends in the discovery of new marine natural products from invertebrates over the last two
decades – where and what are we bioprospecting?,
PLoS ONE 7, 1–15 (2012)
21.2
F.E. Koehn, T. Carter: The evolving role of natural
products in drug discovery, Nat. Rev. 4, 206–220
(2005)
21.3
S.Y. Cheng, C.T. Chuang, S.K. Wang, Z.H. Wen,
S.F. Chiou, C.H. Hsu, C.F. Dai, C.Y. Duh: Antiviral and anti-inflammatory diterpenoids from soft
coral Sinularia gyrosa, J. Nat. Prod. 73, 1184–1187
(2010)
21.4
C.H. Cheo, K.J. Chou, C.Y. Huang, Z.H. Wen, C.H. Hsu,
Y.C. Wu, C.F. Dai, J.H. Sheu: Bioactive cembranoids
from the soft coral Sinularia crassa, Marine Drugs
9, 1955–1968 (2011)
21.5
W.H. Chen, S.K. Wang, C.Y. Duh: Polyhydroxylated
steroids from the bamboo coral Isis hippuris, Marine Drugs 9, 1829–1839 (2011)
21.6
F.F. Radwan, H.M. Aboul-Dahab: Milleporin-1,
a new phospholipase A2 active protein from the
fire coral Millepora platyphylla nematocysts, Comp.
Biochem. Physiol. C. Toxicol. Pharmacol. 139(4),
267–272 (2004)
21.7
J.H. Su, Z.H. Wen: Bioactive cembrane-based diterpenoids from the soft coral Sinularia triangular,
Mar. Drugs 9, 944–951 (2011)
21.8
B. Haefner: Drugs from the deep: Marine natural product as drug candidate, DDT 8, 536–544
(2003)
21.9
S.J. Projan: Infectious diseases in the 21st century: Increasing threats, fewer new treatments and
a premium on prevention, Curr. Opin. Microbiol. 3,
457–458 (2003)
21.10 J.W.H. Li, J.C. Vederas: Drug discovery and natural
products: End of an era or an endless frontier?, Science 325, 161–165 (2009)
21.11 E.R. Mardis: Next-generation DNA sequencing
methods, Ann. Rev. Genomics Hum. Genet. 9, 387–
402 (2008)
21.12 H. Gross: Genome mining – a concept for the
discovery of new bioactive natural products, Curr.
Opin. Drug Disc. Develop. 12(2), 207–219 (2009)
21.13 J. Kennedy, B. Flemer, S.A. Jackson, D.P.H. Lejon,
J.P. Morrissey, F. O’Gara, A.D.W. Dobson: Marine
metagenomics: New tools for the study and exploitation of marine microbial metabolism, Marine
Drugs 8, 608–628 (2010)
21.14 R. Daniel: The metagenomics of soil, Nat. Rev. Microbiol. 3, 470–478 (2005)
21.15 M. Ferrer, A. Beloqui, K.N. Timmis, P.N. Golyshin:
Metagenomics for mining new genetic resources of
microbial communities, J. Mol. Microbiol. Biotechnol. 16, 109–123 (2009)
21.16 K. Gloux, O. Berteau, H. El Oumami, F. Béguet,
M. Leclerc, J. Doré: A metagenomic ˇ-glucuronidase uncovers a core adaptive function of the
human intestinal microbiome, Proc. Natl. Acad. Sci.
U.S.A. 108, 4539–4546 (2010)
21.17 J. Handelsman: Metagenomics: Application of genomics to uncultured microorganisms, Microbiol.
Mol. Biol. Rev. 68, 669–685 (2004)
21.18 C.S. Riesenfeld, P.D. Schloss, J. Handelsman: Metagenomics: Genomic analysis of microbial communities, Annu. Rev. Genet. 38, 525–552 (2004)
21.19 A. Beloqui, T.Y. Nechitaylo, N. López-Cortés,
A. Ghazi, M.E. Guazzaroni, J. Polaina, A.W. Strittmatter, O. Reva, A. Waliczek, M.M. Yakimov,
O.V. Golyshina, M. Ferrer, P.N. Golyshin: Diversity of
glycosyl hydrolases from cellulosedepleting communities enriched from casts of two earthworm
species, Appl. Environ. Microbiol. 76, 5934–5946
(2010)
21.20 R.B. Liaw, M.P. Cheng, M.C. Wu, C.Y. Lee: Use of
metagenomic approaches to isolate lipolytic genes
from activated sludge, Bioresour. Technol. 101,
8323–8329 (2010)
21.21 I.C. Chen, V. Thiruvengadam, W.D. Lin, H.H. Chang,
W.H. Hsu: Lysine racemase: A novel non-antibiotic
selectable marker for plant transformation, Plant
Mol. Biol. 72, 153–169 (2010)
21.22 C. Simon, J. Herath, S. Rockstroh, R. Daniel: Rapid
identification of genes encoding DNA polymerases
by function-based screening of metagenomic libraries derived from glacial ice, Appl. Environ. Microbiol. 75, 2964–2968 (2009)
21.23 C. Wang, D.J. Meek, P. Panchal, N. Boruvka,
F.S. Archibald, B.T. Driscoll, T.C. Charles: Isolation of poly-3-hydroxybutyrate metabolism genes
from complex microbial communities by phenotypic complementation of bacterial mutants, Appl.
Environ. Microbiol. 72, 384–391 (2006)
21.24 T. Uchiyama, T. Abe, T. Ikemura, K. Watanabe: Substrateinduced gene-expression screening of environmental metagenome libraries for isolation of
catabolic genes, Nat. Biotechnol. 23, 88–93 (2005)
21.25 T. Uchiyama, K. Miyazaki: Product-induced gene
expression (PIGEX): A product-responsive reporter
assay for enzyme screening of metagenomic libraries, Appl. Environ. Microbiol. 76(21), 7029–7035
(2010)
21.26 L.L. Williamson, B.R. Borlee, P.D. Schloss, C. Guan,
H.K. Allen, J. Handelsman: Intracellular screen to
identify metagenomic clones that induce or inhibit
a quorum-sensing biosensor, Appl. Environ. Microbiol. 71, 6335–6344 (2005)
21.27 C. Simon, R. Daniel: Metagenomic analyses: Past
and future trends, Appl. Environ. Microbiol. 77(4),
1153–1161 (2011)
538 Part C Marine Genomics
References
21.1
M.C. Leal, J. Puga, J.S. dio, N.C.M. Gomes, R. Calado: Trends in the discovery of new marine natural products from invertebrates over the last two
decades – where and what are we bioprospecting?,
PLoS ONE 7, 1–15 (2012)
21.2
F.E. Koehn, T. Carter: The evolving role of natural
products in drug discovery, Nat. Rev. 4, 206–220
(2005)
21.3
S.Y. Cheng, C.T. Chuang, S.K. Wang, Z.H. Wen,
S.F. Chiou, C.H. Hsu, C.F. Dai, C.Y. Duh: Antiviral and anti-inflammatory diterpenoids from soft
coral Sinularia gyrosa, J. Nat. Prod. 73, 1184–1187
(2010)
21.4
C.H. Cheo, K.J. Chou, C.Y. Huang, Z.H. Wen, C.H. Hsu,
Y.C. Wu, C.F. Dai, J.H. Sheu: Bioactive cembranoids
from the soft coral Sinularia crassa, Marine Drugs
9, 1955–1968 (2011)
21.5
W.H. Chen, S.K. Wang, C.Y. Duh: Polyhydroxylated
steroids from the bamboo coral Isis hippuris, Marine Drugs 9, 1829–1839 (2011)
21.6
F.F. Radwan, H.M. Aboul-Dahab: Milleporin-1,
a new phospholipase A2 active protein from the
fire coral Millepora platyphylla nematocysts, Comp.
Biochem. Physiol. C. Toxicol. Pharmacol. 139(4),
267–272 (2004)
21.7
J.H. Su, Z.H. Wen: Bioactive cembrane-based diterpenoids from the soft coral Sinularia triangular,
Mar. Drugs 9, 944–951 (2011)
21.8
B. Haefner: Drugs from the deep: Marine natural product as drug candidate, DDT 8, 536–544
(2003)
21.9
S.J. Projan: Infectious diseases in the 21st century: Increasing threats, fewer new treatments and
a premium on prevention, Curr. Opin. Microbiol. 3,
457–458 (2003)
21.10 J.W.H. Li, J.C. Vederas: Drug discovery and natural
products: End of an era or an endless frontier?, Science 325, 161–165 (2009)
21.11 E.R. Mardis: Next-generation DNA sequencing
methods, Ann. Rev. Genomics Hum. Genet. 9, 387–
402 (2008)
21.12 H. Gross: Genome mining – a concept for the
discovery of new bioactive natural products, Curr.
Opin. Drug Disc. Develop. 12(2), 207–219 (2009)
21.13 J. Kennedy, B. Flemer, S.A. Jackson, D.P.H. Lejon,
J.P. Morrissey, F. O’Gara, A.D.W. Dobson: Marine
metagenomics: New tools for the study and exploitation of marine microbial metabolism, Marine
Drugs 8, 608–628 (2010)
21.14 R. Daniel: The metagenomics of soil, Nat. Rev. Microbiol. 3, 470–478 (2005)
21.15 M. Ferrer, A. Beloqui, K.N. Timmis, P.N. Golyshin:
Metagenomics for mining new genetic resources of
microbial communities, J. Mol. Microbiol. Biotechnol. 16, 109–123 (2009)
21.16 K. Gloux, O. Berteau, H. El Oumami, F. Béguet,
M. Leclerc, J. Doré: A metagenomic ˇ-glucuronidase uncovers a core adaptive function of the
human intestinal microbiome, Proc. Natl. Acad. Sci.
U.S.A. 108, 4539–4546 (2010)
21.17 J. Handelsman: Metagenomics: Application of genomics to uncultured microorganisms, Microbiol.
Mol. Biol. Rev. 68, 669–685 (2004)
21.18 C.S. Riesenfeld, P.D. Schloss, J. Handelsman: Metagenomics: Genomic analysis of microbial communities, Annu. Rev. Genet. 38, 525–552 (2004)
21.19 A. Beloqui, T.Y. Nechitaylo, N. López-Cortés,
A. Ghazi, M.E. Guazzaroni, J. Polaina, A.W. Strittmatter, O. Reva, A. Waliczek, M.M. Yakimov,
O.V. Golyshina, M. Ferrer, P.N. Golyshin: Diversity of
glycosyl hydrolases from cellulosedepleting communities enriched from casts of two earthworm
species, Appl. Environ. Microbiol. 76, 5934–5946
(2010)
21.20 R.B. Liaw, M.P. Cheng, M.C. Wu, C.Y. Lee: Use of
metagenomic approaches to isolate lipolytic genes
from activated sludge, Bioresour. Technol. 101,
8323–8329 (2010)
21.21 I.C. Chen, V. Thiruvengadam, W.D. Lin, H.H. Chang,
W.H. Hsu: Lysine racemase: A novel non-antibiotic
selectable marker for plant transformation, Plant
Mol. Biol. 72, 153–169 (2010)
21.22 C. Simon, J. Herath, S. Rockstroh, R. Daniel: Rapid
identification of genes encoding DNA polymerases
by function-based screening of metagenomic libraries derived from glacial ice, Appl. Environ. Microbiol. 75, 2964–2968 (2009)
21.23 C. Wang, D.J. Meek, P. Panchal, N. Boruvka,
F.S. Archibald, B.T. Driscoll, T.C. Charles: Isolation of poly-3-hydroxybutyrate metabolism genes
from complex microbial communities by phenotypic complementation of bacterial mutants, Appl.
Environ. Microbiol. 72, 384–391 (2006)
21.24 T. Uchiyama, T. Abe, T. Ikemura, K. Watanabe: Substrateinduced gene-expression screening of environmental metagenome libraries for isolation of
catabolic genes, Nat. Biotechnol. 23, 88–93 (2005)
21.25 T. Uchiyama, K. Miyazaki: Product-induced gene
expression (PIGEX): A product-responsive reporter
assay for enzyme screening of metagenomic libraries, Appl. Environ. Microbiol. 76(21), 7029–7035
(2010)
21.26 L.L. Williamson, B.R. Borlee, P.D. Schloss, C. Guan,
H.K. Allen, J. Handelsman: Intracellular screen to
identify metagenomic clones that induce or inhibit
a quorum-sensing biosensor, Appl. Environ. Microbiol. 71, 6335–6344 (2005)
21.27 C. Simon, R. Daniel: Metagenomic analyses: Past
and future trends, Appl. Environ. Microbiol. 77(4),
1153–1161 (2011)